Protein Info for GFF7340 in Variovorax sp. SCN45

Annotation: ABC transporter, substrate-binding protein (cluster 10, nitrate/sulfonate/bicarbonate)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 363 transmembrane" amino acids 20 to 40 (21 residues), see Phobius details PF09084: NMT1" amino acids 71 to 289 (219 residues), 84.5 bits, see alignment E=1.1e-27 PF13379: NMT1_2" amino acids 159 to 297 (139 residues), 36.2 bits, see alignment E=6.2e-13

Best Hits

KEGG orthology group: None (inferred from 84% identity to vap:Vapar_1901)

Predicted SEED Role

"ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components" in subsystem Alkanesulfonate assimilation

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (363 amino acids)

>GFF7340 ABC transporter, substrate-binding protein (cluster 10, nitrate/sulfonate/bicarbonate) (Variovorax sp. SCN45)
MSIEPSSNLPATTVPSRRLALKTLASFTAVGGLGALGLAGCSRDEGKSASAGGPAVVKQA
GEKVAFKYPDNPSFDLIYLADQLGYFEGTNTRPQYVGKIAAPQIIPLVGTGEIDFGSRMV
PLVISAIASGADLKVVAAGGKTLQEAPHMKYFVRKDSGIHTPKDLEGKTIGFNSFGACAE
FVTKKYLRQHDVDVSKINFVVIPDEQAEQTLVTRNTDLAIIHAPFSGRADNADQLVRLWS
DFDLDGGLGGMAPYSAHGRFIREHPEAVRDVVTALAKAGNWVNANPEEARKLVAKRINMD
LKNVDRFAYVDDLVVTEPPIQYYVDILQSEGKIAAGKVSVKEVYTNEFNPYAQKQPAQPT
AKT